Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,164,998	G→A	*241* (TAG→TAA)	baeR →	response regulator in two‑component regulatory system with BaeS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,164,998	0	G	A	100.0%	137.4 / NA	43	*241* (TAG→TAA)	baeR	response regulator in two‑component regulatory system with BaeS
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (23/20);  total (23/20)

ACCGCACCATCGACAGCCACATTAAAAACCTGCGCCGCAAGCTGGAATCTCTCGACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAGTTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACATTATCCCACGCATGGTCAGCAAACTGACATTATCTCTCCGCCCTGGCAGGCATCAGAAAATCGCTCATACTTTAAT  >  NC_000913/2164868‑2165130                                                                                                                                   |                                                                                                                                     accgCACCATCGACAGCCACATTAAAAACCTGCGCCGCAAGCTGGAATCTCTCGACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCg                                                                                                                              >  2:31315/1‑139 (MQ=255)   cgCACCATCGACAGCCACATTAAATACCTGCGCCGCAAGCTGGAATCTCTCTACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGAc                                                                                                                            <  2:278365/139‑1 (MQ=255)     cACCATCGACAGCCACATTAAAAACCTGCGCCGCAAGCTGGAATCTCTCGACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACat                                                                                                                          >  1:460639/1‑139 (MQ=255)     cACCATCGACAGCCACATTAAAAACCTGCGCCGCAAGCTGGAATCTCTCGACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACat                                                                                                                          >  1:589807/1‑139 (MQ=255)                  cacaTTAAAAACCTGCGCCGCAAGCTGGAATCTCTCGACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGcc                                                                                                             >  1:682556/1‑139 (MQ=255)                    caTTAAAAACCTGCGCCGCAAGCTGGAATCTCTCGACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCgg                                                                                                           >  1:808504/1‑139 (MQ=255)                    caTTAAAAACCTGCGCCGCAAGCTGGAATCTCTCGACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGACGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCgg                                                                                                           >  2:371246/1‑139 (MQ=255)                         aaaaCCTGCGCCGCAAGCTGGAATCTCTCGACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATg                                                                                                      <  1:31315/139‑1 (MQ=255)                                      cAAGCTGGAATCTCTCGACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGa                                                                                                                             >  2:830963/1‑103 (MQ=255)                                      cAAGCTGGAATCTCTCGACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGa                                                                                                                             <  1:830963/103‑1 (MQ=255)                                                  tctcGACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACAt                                                                             <  2:822692/139‑1 (MQ=255)                                                   ctcGACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATg                                                                                                      >  1:898158/1‑113 (MQ=255)                                                   ctcGACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATg                                                                                                      <  2:898158/113‑1 (MQ=255)                                                           cGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCg                                                                                                                              <  1:197995/81‑1 (MQ=255)                                                           cGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCg                                                                                                                              >  2:197995/1‑81 (MQ=255)                                                              aCAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACATTATCCCACGCAt                                                                 <  1:205415/139‑1 (MQ=255)                                                                          ccGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACATTATCCCACGCATGGTCAGCAAACt                                                     <  2:136747/139‑1 (MQ=255)                                                                            gcgcCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACATTATCCCACGCATGGTCAGCAAACTGa                                                   <  1:371246/139‑1 (MQ=255)                                                                            gcgcCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACATTATCCCACGCATGGTCAGCAAACTGa                                                   >  2:815857/1‑139 (MQ=255)                                                                             cgcCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACa                                                                              >  2:854469/1‑111 (MQ=255)                                                                             cgcCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACa                                                                              <  1:854469/111‑1 (MQ=255)                                                                              gcCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGGATCGTTTAATTTTAGCGCCATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACATTATCCCACGCATGGTCAGCAAACTGACa                                                 >  2:673029/1‑139 (MQ=255)                                                                                  tttATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACATTATCCCACGCATGGTCAGCaaa                                                       <  1:563855/129‑1 (MQ=255)                                                                                  tttATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACATTATCCCACGCATGGTCAGCaaa                                                       >  2:563855/1‑129 (MQ=255)                                                                                           tCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGATTAATTTTAGAGACATTATTTTGTTAACCGGAGATGGCGTTCAGACCAGATCCGGCAACATTATCCCACGCATGGTCAGCAAACTGACATTATCTCTCCGcc                                    >  1:591475/1‑139 (MQ=255)                                                                                            cGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGTGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACATTATCCCACGCATGGTCAGCAAACTGACATTATCTCTCCGccc                                   >  1:370470/1‑139 (MQ=255)                                                                                            cGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGAc                                                                                                                            >  1:55208/1‑50 (MQ=255)                                                                                            cGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGAc                                                                                                                            <  2:55208/50‑1 (MQ=255)                                                                                            cGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACatta                                                                                                                        >  2:109392/1‑54 (MQ=255)                                                                                            cGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACatta                                                                                                                        <  1:109392/54‑1 (MQ=255)                                                                                             ggTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGtt                                                                                                 >  2:201035/1‑76 (MQ=255)                                                                                             ggTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGtt                                                                                                 <  1:201035/76‑1 (MQ=255)                                                                                                     cTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAg                                                                                                                                >  2:526166/1‑37 (MQ=38)                                                                                                     cTGGGAAGCCGACGCCTGCCGCATCGTTTAATTTTAg                                                                                                                                <  1:526166/37‑1 (MQ=255)                                                                                                        ggAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACa                                                                              >  2:370748/1‑84 (MQ=255)                                                                                                        ggAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACa                                                                              <  1:370748/84‑1 (MQ=255)                                                                                                        ggAAGCCGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACATTATCCCACGCATGGTCAGCAAACTGACATTATCTCTCCGCCCTGGCAGGCATCa                       >  2:163190/1‑139 (MQ=255)                                                                                                             ccGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACATTATCCCACGCATGGTCAGCAAACTGACATTATCTCTCCGCCCTGGCAGGCATCAGaaaa                  >  1:6428/1‑139 (MQ=255)                                                                                                              cGACGCCTGCCGCATCGTTTAATTTTCGCGACATTATTTTGTTAGCCGGAGATGGCGTTCACACCAGATCCGGCAACATTATCCCACGCATGGTCAGCAAACTGACATTATCTCTCCGCCCTGGCAGGCATCAGAAAAt                 <  2:591475/139‑1 (MQ=255)                                                                                                              cGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACa                                                                              >  2:187991/1‑78 (MQ=255)                                                                                                              cGACGCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACa                                                                              <  1:187991/78‑1 (MQ=255)                                                                                                                  gCCTGCCGCATCGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCAGGCAACATTATCCCACGCATGGTCAGCAAACTGACATTATCTCTCCGCCCTGGCAGGCATCAGAAAATCGCt             <  2:460639/139‑1 (MQ=255)                                                                                                                             cGTTTAATTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACATTATCCCACGCATGGTCAGCAAACTGACATTATCTCTCCGCCCTGGCAGGCATCAGAAAATCGCTCATACTTTAAt  <  1:163190/139‑1 (MQ=255)                                                                                                                                   |                                                                                                                                     ACCGCACCATCGACAGCCACATTAAAAACCTGCGCCGCAAGCTGGAATCTCTCGACGCCGAACAGTCATTTATCCGCGCCGTTTATGGCGTCGGTTACCGCTGGGAAGCCGACGCCTGCCGCATCGTTTAGTTTTAGCGACATTATTTTGTTAGCCGGAGATGGCGTTCAGACCAGATCCGGCAACATTATCCCACGCATGGTCAGCAAACTGACATTATCTCTCCGCCCTGGCAGGCATCAGAAAATCGCTCATACTTTAAT  >  NC_000913/2164868‑2165130

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑